Research Links – Research Tools


Ensembl
The Ensembl project produces genome databases for vertebrates and other eukaryotic species, and makes this information freely available online.
http://www.ensembl.org

Genecards
Everything you always wanted to know about your gene of interest: aliases, expression, function and much more, GeneCards provides gene-centric information, automatically mined and integrated from a myriad of data sources, resulting in a web-based card for each of the tens of thousands of human gene entries.
http://www.genecards.org

Human Protein Reference Database (HPRD)
The Human Protein Reference Database represents a centralized platform to visually depict and integrate information pertaining to domain architecture, post-translational modifications, interaction networks and disease association for each protein in the human proteome. This database gives you a wide overview on your proteins locations, domains, interactions and more.
http://www.hprd.org

Protein Data Bank (PDB)
The Protein Data Bank (PDB) archive is the single worldwide repository of information about the 3D structures of large biological molecules, including proteins and nucleic acids. Managed by the Research Collaboratory for Structural Bioinformatics (RCSB) it is freely and publicly available to the global community. Want to see how your protein looks in 3D? All structural information and interactions can be found with this webpage.
http://www.pdb.org

BioGPS
A free extensible and customizable gene annotation portal, a complete resource for learning about gene and protein function.
http://biogps.org/

EMBL-EBI – The European Bioinformatics Institute
Their services include DNA-RNA, gene expression, protein, structures, systems, chemical biology, ontologies, literature and cross domain databases, tools and resources.
http://www.ebi.ac.uk/

GEO Gene Expression Omnibus
Looking for transcriptomics, RNAseq, ChIP-seq data and more? GEO has them all. GEO is a public functional genomics data repository for array- and sequence-based data. Great tools are available to help users query and download experiments, compare experimental groups and find profiles of expression/regulation for your gene(s) of interest.
http://www.ncbi.nlm.nih.gov/geo/

National Center for Biotechnology Information resources
Largest database collection for all the topics you need
https://www.ncbi.nlm.nih.gov/guide/all/

PubMed
PubMed comprises more than 21 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
http://www.ncbi.nlm.nih.gov/pubmed

RegulomeDB
Find DNA regulatory elements and other features in the non-coding regions of the DNA associated with SNPs.
http://www.regulomedb.org/

UCSC Genome Browser
The complete human genome, assembled by the International Human Genome Project Consortium in 2000, and later extended to include other organisms, together with a great selection of tools to view, compare and download data (alignments, functionality predictions, in silico PCR and more).
https://genome.ucsc.edu/